Human Gene S1PR1 (uc001dud.2)
  Description: sphingosine-1-phosphate receptor 1
RefSeq Summary (NM_001400): The protein encoded by this gene is structurally similar to G protein-coupled receptors and is highly expressed in endothelial cells. It binds the ligand sphingosine-1-phosphate with high affinity and high specificity, and suggested to be involved in the processes that regulate the differentiation of endothelial cells. Activation of this receptor induces cell-cell adhesion. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Mar 2016].
Transcript (Including UTRs)
   Position: hg18 chr1:101,474,893-101,479,664 Size: 4,772 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg18 chr1:101,477,129-101,478,277 Size: 1,149 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDMicroarray Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathways
Other NamesModel InformationMethods
Data last updated at UCSC: 2009-03-03

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr1:101,474,893-101,479,664)mRNA (may differ from genome)Protein (382 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Sphingosine 1-phosphate receptor 1; Short=S1P receptor 1; Short=S1P1; AltName: Full=Endothelial differentiation G-protein coupled receptor 1; AltName: Full=Sphingosine 1-phosphate receptor Edg-1; Short=S1P receptor Edg-1; AltName: CD_antigen=CD363;
FUNCTION: Receptor for the lysosphingolipid sphingosine 1- phosphate (S1P). S1P is a bioactive lysophospholipid that elicits diverse physiological effect on most types of cells and tissues. This inducible epithelial cell G-protein-coupled receptor may be involved in the processes that regulate the differentiation of endothelial cells. Seems to be coupled to the G(i) subclass of heteromeric G proteins.
SUBCELLULAR LOCATION: Cell membrane; Multi-pass membrane protein.
TISSUE SPECIFICITY: Endothelial cells, and to a lesser extent, in vascular smooth muscle cells, fibroblasts, melanocytes, and cells of epithelioid origin.
INDUCTION: By the tumor promoter phorbol 12-myristate 13-acetate (PMA) in the presence of cycloheximide.
PTM: S1P-induced endothelial cell migration requires the PKB/AKT1- mediated phosphorylation of the third intracellular loop at the Thr-236 residue.
SIMILARITY: Belongs to the G-protein coupled receptor 1 family.

-  Primer design for this transcript

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D013749 Tetrachlorodibenzodioxin
  • D002945 Cisplatin
  • D016572 Cyclosporine
  • D003993 Dibutyl Phthalate
  • D014635 Valproic Acid
  • C006253 pirinixic acid
  • C012589 trichostatin A
  • C514353 1-(4-((4-phenyl-5-trifluoromethyl-2-thienyl)methoxy)benzyl)azetidine-3-carboxylic acid
  • C049584 2-amino-1-methyl-6-phenylimidazo(4,5-b)pyridine
  • D015127 9,10-Dimethyl-1,2-benzanthracene
          more ... click here to view the complete list

-  Microarray Expression Data
Expression ratio colors:

GNF Expression Atlas 2 Data from U133A and GNF1H Chips


Affymetrix All Exon Microarrays


-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -220.60514-0.429 Picture PostScript Text
3' UTR -391.351387-0.282 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000276 - 7TM_GPCR_Rhodpsn
IPR000987 - EDG1_rcpt
IPR017452 - GPCR_Rhodpsn_supfam
IPR004061 - S1P_rcpt

Pfam Domains:
PF00001 - 7 transmembrane receptor (rhodopsin family)

Protein Data Bank (PDB) 3-D Structure
MuPIT help
3V2W - X-ray 3V2Y - X-ray

ModBase Predicted Comparative 3D Structure on P21453
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0001664 G-protein coupled receptor binding
GO:0004871 signal transducer activity
GO:0004930 G-protein coupled receptor activity
GO:0005515 protein binding
GO:0038036 sphingosine-1-phosphate receptor activity
GO:0046625 sphingolipid binding

Biological Process:
GO:0001525 angiogenesis
GO:0001955 blood vessel maturation
GO:0003245 cardiac muscle tissue growth involved in heart morphogenesis
GO:0003376 sphingosine-1-phosphate signaling pathway
GO:0006935 chemotaxis
GO:0007155 cell adhesion
GO:0007165 signal transduction
GO:0007186 G-protein coupled receptor signaling pathway
GO:0007193 adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway
GO:0007420 brain development
GO:0008284 positive regulation of cell proliferation
GO:0016477 cell migration
GO:0019221 cytokine-mediated signaling pathway
GO:0019226 transmission of nerve impulse
GO:0030032 lamellipodium assembly
GO:0030155 regulation of cell adhesion
GO:0030182 neuron differentiation
GO:0030335 positive regulation of cell migration
GO:0030500 regulation of bone mineralization
GO:0030595 leukocyte chemotaxis
GO:0031532 actin cytoskeleton reorganization
GO:0043547 positive regulation of GTPase activity
GO:0045124 regulation of bone resorption
GO:0045446 endothelial cell differentiation
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0048661 positive regulation of smooth muscle cell proliferation
GO:0050927 positive regulation of positive chemotaxis
GO:0051482 positive regulation of cytosolic calcium ion concentration involved in phospholipase C-activating G-protein coupled signaling pathway
GO:0051497 negative regulation of stress fiber assembly
GO:0061384 heart trabecula morphogenesis
GO:0072678 T cell migration

Cellular Component:
GO:0005654 nucleoplasm
GO:0005768 endosome
GO:0005886 plasma membrane
GO:0009897 external side of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0031226 intrinsic component of plasma membrane
GO:0043231 intracellular membrane-bounded organelle
GO:0045121 membrane raft

-  Descriptions from all associated GenBank mRNAs
  AK297005 - Homo sapiens cDNA FLJ58121 complete cds, highly similar to Sphingosine 1-phosphate receptor Edg-1.
AK312493 - Homo sapiens cDNA, FLJ92854, Homo sapiens endothelial differentiation, sphingolipidG-protein-coupled receptor, 1 (EDG1), mRNA.
BC018650 - Homo sapiens sphingosine-1-phosphate receptor 1, mRNA (cDNA clone MGC:22155 IMAGE:4071217), complete cds.
M31210 - Human endothelial differentiation protein (edg-1) gene mRNA, complete cds.
AB385113 - Synthetic construct DNA, clone: pF1KB5522, Homo sapiens EDG1 gene for sphingosine 1-phosphate receptor Edg-1, complete cds, without stop codon, in Flexi system.
AF022137 - Homo sapiens G protein-coupled receptor (EDG1) mRNA, partial cds.
CR541786 - Homo sapiens full open reading frame cDNA clone RZPDo834F0830D for gene EDG1, endothelial differentiation, sphingolipid G-protein-coupled receptor, 1; complete cds, without stopcodon.
AF233365 - Homo sapiens G protein-coupled sphingolipid receptor (CHEDG1) mRNA, complete cds.
CR542269 - Homo sapiens full open reading frame cDNA clone RZPDo834H0426D for gene EDG1, endothelial differentiation, sphingolipid G-protein-coupled receptor, 1; complete cds, incl. stopcodon.
JD490225 - Sequence 471249 from Patent EP1572962.
JD361663 - Sequence 342687 from Patent EP1572962.
JD389588 - Sequence 370612 from Patent EP1572962.
JD533976 - Sequence 515000 from Patent EP1572962.
JD564847 - Sequence 545871 from Patent EP1572962.
JD521788 - Sequence 502812 from Patent EP1572962.
KJ891082 - Synthetic construct Homo sapiens clone ccsbBroadEn_00476 S1PR1 gene, encodes complete protein.
JD305042 - Sequence 286066 from Patent EP1572962.
JD054782 - Sequence 35806 from Patent EP1572962.
JD200760 - Sequence 181784 from Patent EP1572962.
JD239181 - Sequence 220205 from Patent EP1572962.
JD251989 - Sequence 233013 from Patent EP1572962.
JD121291 - Sequence 102315 from Patent EP1572962.
JD058894 - Sequence 39918 from Patent EP1572962.
JD142905 - Sequence 123929 from Patent EP1572962.
JD282929 - Sequence 263953 from Patent EP1572962.
JD327870 - Sequence 308894 from Patent EP1572962.
JD261797 - Sequence 242821 from Patent EP1572962.
JD116011 - Sequence 97035 from Patent EP1572962.
JD237845 - Sequence 218869 from Patent EP1572962.
LF211927 - JP 2014500723-A/19430: Polycomb-Associated Non-Coding RNAs.
LF206314 - JP 2014500723-A/13817: Polycomb-Associated Non-Coding RNAs.
LF353123 - JP 2014500723-A/160626: Polycomb-Associated Non-Coding RNAs.
LF353122 - JP 2014500723-A/160625: Polycomb-Associated Non-Coding RNAs.
MA447504 - JP 2018138019-A/19430: Polycomb-Associated Non-Coding RNAs.
MA441891 - JP 2018138019-A/13817: Polycomb-Associated Non-Coding RNAs.
MA588700 - JP 2018138019-A/160626: Polycomb-Associated Non-Coding RNAs.
MA588699 - JP 2018138019-A/160625: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04080 - Neuroactive ligand-receptor interaction

BioCarta from NCI Cancer Genome Anatomy Project
h_edg1Pathway - Phospholipids as signalling intermediaries

-  Other Names for This Gene
  Alternate Gene Symbols: CHEDG1, EDG1, hCG_1640193, NM_001400, NP_001391, Q9BYY4, Q9NYN8, Q9NYN8_HUMAN, RP4-575N6.1-001, uc001dud.1
UCSC ID: uc001dud.2
RefSeq Accession: NM_001400
Protein: P21453 (aka S1PR1_HUMAN)

-  Gene Model Information
category: coding nonsense-mediated-decay: no RNA accession: NM_001400.4
exon count: 2CDS single in 3' UTR: no RNA size: 3050
ORF size: 1149CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2367.50frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.